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Bayesian inference of signaling network topology in a cancer cell line.
Hill SM, Lu Y, Molina J, Heiser LM, Spellman PT, Speed TP, Gray JW, Mills GB, Mukherjee S. Hill SM, et al. Among authors: mukherjee s. Bioinformatics. 2012 Nov 1;28(21):2804-10. doi: 10.1093/bioinformatics/bts514. Epub 2012 Aug 24. Bioinformatics. 2012. PMID: 22923301 Free PMC article.
Sparse combinatorial inference with an application in cancer biology.
Mukherjee S, Pelech S, Neve RM, Kuo WL, Ziyad S, Spellman PT, Gray JW, Speed TP. Mukherjee S, et al. Bioinformatics. 2009 Jan 15;25(2):265-71. doi: 10.1093/bioinformatics/btn611. Epub 2008 Nov 27. Bioinformatics. 2009. PMID: 19038985 Free PMC article.
Network inference using steady-state data and Goldbeter-Koshland kinetics. [corrected].
Oates CJ, Hennessy BT, Lu Y, Mills GB, Mukherjee S. Oates CJ, et al. Among authors: mukherjee s. Bioinformatics. 2012 Sep 15;28(18):2342-8. doi: 10.1093/bioinformatics/bts459. Epub 2012 Jul 19. Bioinformatics. 2012. PMID: 22815361 Free PMC article.
AVAILABILITY: mukherjeelab.nki.nl/CODE/GK_Kinetics.zip CONTACT: c.j.oates@warwick.ac.uk; s.mukherjee@nki.nl SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online....
AVAILABILITY: mukherjeelab.nki.nl/CODE/GK_Kinetics.zip CONTACT: c.j.oates@warwick.ac.uk; s.mukherjee@nki.nl SUPPLEMENTARY INFO …
Causal network inference using biochemical kinetics.
Oates CJ, Dondelinger F, Bayani N, Korkola J, Gray JW, Mukherjee S. Oates CJ, et al. Among authors: mukherjee s. Bioinformatics. 2014 Sep 1;30(17):i468-74. doi: 10.1093/bioinformatics/btu452. Bioinformatics. 2014. PMID: 25161235 Free PMC article.
Network inference using informative priors.
Mukherjee S, Speed TP. Mukherjee S, et al. Proc Natl Acad Sci U S A. 2008 Sep 23;105(38):14313-8. doi: 10.1073/pnas.0802272105. Epub 2008 Sep 17. Proc Natl Acad Sci U S A. 2008. PMID: 18799736 Free PMC article.
Decoupling of the PI3K Pathway via Mutation Necessitates Combinatorial Treatment in HER2+ Breast Cancer.
Korkola JE, Collisson EA, Heiser M, Oates C, Bayani N, Itani S, Esch A, Thompson W, Griffith OL, Wang NJ, Kuo WL, Cooper B, Billig J, Ziyad S, Hung JL, Jakkula L, Feiler H, Lu Y, Mills GB, Spellman PT, Tomlin C, Mukherjee S, Gray JW. Korkola JE, et al. Among authors: mukherjee s. PLoS One. 2015 Jul 16;10(7):e0133219. doi: 10.1371/journal.pone.0133219. eCollection 2015. PLoS One. 2015. PMID: 26181325 Free PMC article.
Inferring causal molecular networks: empirical assessment through a community-based effort.
Hill SM, Heiser LM, Cokelaer T, Unger M, Nesser NK, Carlin DE, Zhang Y, Sokolov A, Paull EO, Wong CK, Graim K, Bivol A, Wang H, Zhu F, Afsari B, Danilova LV, Favorov AV, Lee WS, Taylor D, Hu CW, Long BL, Noren DP, Bisberg AJ; HPN-DREAM Consortium; Mills GB, Gray JW, Kellen M, Norman T, Friend S, Qutub AA, Fertig EJ, Guan Y, Song M, Stuart JM, Spellman PT, Koeppl H, Stolovitzky G, Saez-Rodriguez J, Mukherjee S. Hill SM, et al. Among authors: mukherjee s. Nat Methods. 2016 Apr;13(4):310-8. doi: 10.1038/nmeth.3773. Epub 2016 Feb 22. Nat Methods. 2016. PMID: 26901648 Free PMC article.
6,611 results